BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 033485
         (118 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|1ZR9|A Chain A, Solution Structure Of A Human C2h2-Type Zinc Finger
           Protein
          Length = 124

 Score = 62.8 bits (151), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 39/90 (43%), Positives = 55/90 (61%), Gaps = 5/90 (5%)

Query: 22  AKFLRKGDDAVYDELQRSDSAK-NPLP---FDEDLPGMGQYYCLHCDRYFAHESVRDEHF 77
           AK  R   D ++ EL+   SA+  P P   FD DLPG G + CL C RYF   +    HF
Sbjct: 11  AKRRRPDLDEIHRELRPQGSARPQPDPNAEFDPDLPGGGLHRCLACARYFIDSTNLKTHF 70

Query: 78  KTKRHKKRVKEMMGPKPHTQLDADLAAGMG 107
           ++K HKKR+K+ +  +P++Q +A+ AAGMG
Sbjct: 71  RSKDHKKRLKQ-LSVEPYSQEEAERAAGMG 99


>pdb|3CW1|L Chain L, Crystal Structure Of Human Spliceosomal U1 Snrnp
 pdb|3CW1|9 Chain 9, Crystal Structure Of Human Spliceosomal U1 Snrnp
 pdb|3CW1|0 Chain 0, Crystal Structure Of Human Spliceosomal U1 Snrnp
 pdb|3CW1|LL Chain l, Crystal Structure Of Human Spliceosomal U1 Snrnp
          Length = 77

 Score = 33.9 bits (76), Expect = 0.025,   Method: Compositional matrix adjust.
 Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 6/56 (10%)

Query: 55  MGQYYCLHCDRYFAHE--SVRDEHFKTKRHKKRVKE----MMGPKPHTQLDADLAA 104
           M ++YC +CD Y  H+  SVR  H   ++HK+ VK+     M  +  + +D   AA
Sbjct: 1   MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYCKWMEEQAQSLIDKTTAA 56


>pdb|2VRD|A Chain A, The Structure Of The Zinc Finger From The Human
           Spliceosomal Protein U1c
          Length = 61

 Score = 33.5 bits (75), Expect = 0.029,   Method: Compositional matrix adjust.
 Identities = 19/56 (33%), Positives = 30/56 (53%), Gaps = 6/56 (10%)

Query: 55  MGQYYCLHCDRYFAHE--SVRDEHFKTKRHKKRVKE----MMGPKPHTQLDADLAA 104
           M ++YC +CD Y  H+  SVR  H   ++HK+ VK+     M  +  + +D   AA
Sbjct: 1   MPKFYCDYCDTYLTHDSPSVRKTHCSGRKHKENVKDYYQKWMEEQAQSLIDKTTAA 56


>pdb|4DGW|A Chain A, Crystal Structure Of The Sf3a Splicing Factor Complex Of
           U2 Snrnp
          Length = 402

 Score = 27.3 bits (59), Expect = 2.0,   Method: Composition-based stats.
 Identities = 12/26 (46%), Positives = 14/26 (53%)

Query: 59  YCLHCDRYFAHESVRDEHFKTKRHKK 84
           YC  C R+F   SV + H   K HKK
Sbjct: 294 YCPFCSRWFKTSSVFESHLVGKIHKK 319


>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
          Of Human Transcriptional Repressor Ctcf
          Length = 86

 Score = 26.6 bits (57), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 10/21 (47%), Positives = 13/21 (61%)

Query: 58 YYCLHCDRYFAHESVRDEHFK 78
          Y C HCD+ F  + + D HFK
Sbjct: 16 YACSHCDKTFRQKQLLDMHFK 36


>pdb|4ESJ|A Chain A, Restriction Endonuclease Dpni In Complex With Target Dna
 pdb|4ESJ|B Chain B, Restriction Endonuclease Dpni In Complex With Target Dna
          Length = 257

 Score = 26.2 bits (56), Expect = 5.5,   Method: Compositional matrix adjust.
 Identities = 13/43 (30%), Positives = 20/43 (46%)

Query: 29 DDAVYDELQRSDSAKNPLPFDEDLPGMGQYYCLHCDRYFAHES 71
          +D VY +    +   NPL   E+   +  +YC HC   F  +S
Sbjct: 28 EDWVYRQSYCPNCGNNPLNHFENNRPVADFYCNHCSEEFELKS 70


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.320    0.137    0.426 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,815,827
Number of Sequences: 62578
Number of extensions: 144595
Number of successful extensions: 308
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 296
Number of HSP's gapped (non-prelim): 11
length of query: 118
length of database: 14,973,337
effective HSP length: 81
effective length of query: 37
effective length of database: 9,904,519
effective search space: 366467203
effective search space used: 366467203
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)